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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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CellMarker Resource Report Resource Website 500+ mentions |
CellMarker (RRID:SCR_018503) | data or information resource, database, service resource | Database provides cell markers for various cell types in tissues of human and mouse. Manually curated resource of cell markers in human and mouse. Provides user-friendly interface for browsing, searching and downloading markers of diverse cell types of different tissues. Summarized marker prevalence in each cell type is graphically presented., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Cell marker, cell type, tissue, graphical presentation, searching data, downloading data, marker, FASEB list | has parent organization: Harbin Medical University; Heilongjiang; China | China Postdoctoral Science Foundation ; National High Technology Research and Development Program of China ; National Natural Science Foundation of China |
PMID:30289549 | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_018503 | SciCrunch Registry | 2026-10-17 01:35:31 | 544 | ||||||||
|
miRanda Resource Report Resource Website 100+ mentions |
miRanda (RRID:SCR_017496) | data or information resource, database, service resource | Comprehensive resource of microRNA target predictions and expression profiles. Used for whole genome prediction of miRNA target genes. For each miRNA, target genes are selected on basis of sequence complementarity using position weighted local alignment algorithm, free energies of RNA-RNA duplexes, and conservation of target sites in related genomes. Provides information about set of genes potentially regulated by particular microRNA, co-occurrence of predicted target sites for multiple microRNAs in mRNA and microRNA expression profiles in tissues. Users are allowed to customize algorithm, numerical parameters, and position-specific rules., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Whole, genome, prediction, miRNA, target, gene, expression, profile, data, FASEB list | is listed by: SoftCite | Alfred W. Bressler Scholars Endowment Fund ; Atlantic Philanthropies ; NIGMS |
PMID:18158296 | THIS RESOURCE IS NO LONGER IN SERVICE | http://www.microrna.org/microrna/home.do | SCR_017496 | SciCrunch Registry | MicroRNA.org. microrna.org | 2026-10-17 01:35:30 | 281 | ||||||
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NBRP Medaka CRISPR target site Resource Report Resource Website 1+ mentions |
NBRP Medaka CRISPR target site (RRID:SCR_018159) | analysis service resource, production service resource, service resource | Web tool to show micro homology sequences striding over double strand break point created by CRISPR/Cas9 system. Used to search for CRISPR target site with micro-homology sequences. Used to predict deletion pattern. | Micro homology sequence, double strand break point, CRISPR/Cas9 system, predict deletion pattern, sequence, mutation, target gene | Free, Freely available | SCR_018159 | SciCrunch Registry | 2026-10-17 01:34:19 | 3 | |||||||||||
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EVmiRNA Resource Report Resource Website 1+ mentions |
EVmiRNA (RRID:SCR_018795) | data or information resource, database | Collection of comprehensive miRNA expression profiles in extracellular vesicles from tissues. Includes miRNA expression profiles, miRNA regulated pathways, miRNA function, miRNA related drugs and publications to support miRNA biomarker discovery. | miRNA, miRNA expression profile, extracellular vesicle, tissue, miRNA regulated pathway, miRNA function, drug, publication, miRNA biomarker, data | China Postdoctoral Science Foundation ; National Key Research and Development Program of China ; National Natural Science Foundation of China |
PMID:30335161 | Free, Freely available | SCR_018795 | SciCrunch Registry | Extracellular Vesicles miRNA Database | 2026-10-17 01:33:39 | 2 | ||||||||
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LPSN Database Resource Report Resource Website 100+ mentions |
LPSN Database (RRID:SCR_018151) | data or information resource, database, service resource | Database lists names of prokaryotes that have been validly published in International Journal of Systematic and Evolutionary Microbiology directly or by inclusion in Validation List, under Rules of International Code of Nomenclature of Bacteria. Has classification of prokaryotes and information on prokaryotic nomenclature and culture collections. | Collection, published Prokaryote name, International Journal of Systematic and Evolutionary Microbiology, prokaryotes classification, prokaryotes nomenclature, culture collection, data, FASEB list | DOI:10.1093/nar/gkt1111 | Free, Freely available | SCR_018151 | SciCrunch Registry | List of Prokaryotic names with Standing in Nomenclature Database | 2026-10-17 01:33:41 | 142 | |||||||||
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IST Online Resource Report Resource Website 10+ mentions |
IST Online (RRID:SCR_018794) | data or information resource, database, service resource | Database by Medisapiens Ltd. as fully integrated and annotated human gene expression data source. All genes are comparable across all samples. Provides data analysis options using database of human transcriptome. | Human gene, gene expression data, data, gene expression, gene, human transcriptome, Medisapiens Ltd. | Restricted | SCR_018794 | SciCrunch Registry | 2026-10-17 01:34:20 | 16 | |||||||||||
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Viral Integrated Structural Evolution Dynamic Database Resource Report Resource Website 1+ mentions |
Viral Integrated Structural Evolution Dynamic Database (RRID:SCR_018793) | VIStEDD | data or information resource, database | Database of SARS-CoV-2 and other viruses. Integrates structural and dynamic insights with viral evolution for proteins coded by virus. Each virus within database has workflow performed on each protein. Workflow consists of protein modeling, molecular dynamic simulations, evolutionary analysis, and mapping of protein-protein interactions. On page for each protein is link to individual protein data folder system, video of protein rotating with conservation, details of protein function, widget to purchase 3D print of protein at cost of production, amino acid movement from molecular dynamic simulations, and table of data for each amino acid of protein. | Virus, SARS-CoV-2, COVID-19, proteins coded by virus, viral evolution, protein, data, amino acid, protein modeling, molecular dynamic simulation, evolutionary analysis, protein-protein interaction, protein- protein interaction mapping, protein data folder system, rotating protein video, protein function, molecular dynamic simulation | has parent organization: Michigan State University; Michigan; USA | COVID-19 | NIEHS K01 ES025435; NIGMS R01 GM108618 |
PMID:32511397 | Free, Freely available | SCR_018793 | SciCrunch Registry | Viral Integrated Structural Evolution Dynamic Database, SARS-CoV-2 dynamicome database | 2026-10-17 01:33:42 | 3 | |||||
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C. elegans RNAi Collection (Ahringer) Resource Report Resource Website 10+ mentions |
C. elegans RNAi Collection (Ahringer) (RRID:SCR_017064) | data or information resource, database | C. elegans RNAi feeding library distributed by Source BioScience Ltd. Designed for genome wide study of gene function in C. elegans through loss of function studies. | Source BioScience Ltd, data, collection, bacterial, strain, Caenorhabditis elegans, RNA, interference, RNAi, gene, function, analysis, feeding, library | has parent organization: University of Cambridge; Cambridge; United Kingdom | Howard Hughes Medical Institute Predoctoral Fellow- ship ; Wellcome Trust Senior Research Fellowship |
PMID:12828945 | Available for purchase | SCR_017064 | SciCrunch Registry | 2026-10-17 01:35:28 | 16 | ||||||||
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Drosphila Brain Lineage Atlas Resource Report Resource Website 1+ mentions |
Drosphila Brain Lineage Atlas (RRID:SCR_017507) | atlas, data or information resource, service resource | Atlas providing structure and development of Drosophila brain lineages. Used to learn about projection pattern of lineages as first step towards reconstructing and understanding all neurons. | Structure, development, Drosophila, brain, lineage, neuron, brain | has parent organization: University of California at Los Angeles; California; USA | Free, Freely available | SCR_017507 | SciCrunch Registry | 2026-10-17 01:33:39 | 1 | ||||||||||
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Rodent tactile navigation Resource Report Resource Website 1+ mentions |
Rodent tactile navigation (RRID:SCR_016538) | data or information resource, database | Dataset. We have a DataNote paper in Gigascience, in press which introduces a large videography dataset that is freely available for anyone to study the principles of tactile navigation. | Free, Freely available | SCR_016538 | SciCrunch Registry | 2026-10-17 01:34:18 | 2 | ||||||||||||
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CIS-BP Resource Report Resource Website 100+ mentions |
CIS-BP (RRID:SCR_017236) | data access protocol, data or information resource, database, software resource, web service | Software tool as catalog of inferred sequence binding preferences. Online library of transcription factors and their DNA binding motifs. | catalog, inferred, sequence, binding, preference, transcription, factor, DNA, motif, FASEB list | Canadian Institute for Advanced Research Junior Fellows Genetic Networks Program ; Canadian Institutes of Health Research ; EU Marie Curie International Outgoing Fellowship ; Fondo Nacional de Desarrollo Científico y Tecnológico ; Gordon and Betty Moore Foundation ; Howard Hughes Medical Institute ; Millennium Nucleus for Fungal Integrative and Synthetic Biology ; NICHD P01 HD39691; NIGMS GM082971; NSF MCB-1024999 |
PMID:25215497 | Free, Freely available | r3d100013971 | https://doi.org/10.17616/R31NJN9V | SCR_017236 | SciCrunch Registry | Catalog of Inferred Sequence Binding Preferences | 2026-10-17 01:33:41 | 115 | ||||||
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Pancreatlas Resource Report Resource Website 10+ mentions |
Pancreatlas (RRID:SCR_018567) | atlas, data or information resource | Collection of human pancreas data and images. Platform to share data from human pancreas samples. Houses reference datasets from human pancreas samples, achieved through generosity of organ donors and their families. | Human pancreas data, pancreas image, reference dataset, human pancreas sample, organ donor pancreas data |
lists: Exeter Archival Diabetes Biobank (EADB) is related to: Vanderbilt University; Tennessee; USA is related to: Human Islet Research Network (HIRN) works with: Exeter Archival Diabetes Biobank (EADB) |
Type 1 diabetes, Diabetes, Type 2 diabetes, Cystic Fibrosis-Related Diabetes | Leona M. and Harry B. Helmsley Charitable Trust ; NCI CA68485; NEI EY08126; NIDDK DK104211; NIDDK DK106755; NIDDK DK108120; NIDDK DK112232; NIDDK DK20593; NIDDK DK58404; NIDDK DK59637 |
Free, Freely available | SCR_018567 | SciCrunch Registry | 2026-10-17 01:33:39 | 13 | ||||||||
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Plant Cell Culture Library (PCCL) Resource Report Resource Website 1+ mentions |
Plant Cell Culture Library (PCCL) (RRID:SCR_016784) | PCCL | data or information resource, database | Collection of plant species for use by both academia and industry.The PCCL enables R&D exploitation of monocot, dicot and gymnosperm cultures. | collection, plant, monocot, dicot, gymnosperm, culture | NSF DBI 156 1572; Science and Technology fund from the President office of the University of Massachusetts ; UMass Amherst Armstrong Fund for Science ; United States Department of Agriculture Massachusetts Experiment Station Award |
Free, Freely available | SCR_016784 | SciCrunch Registry | the Plant Cell Culture Library (PCCL), The Plant Cell Culture Library, Plant Cell Culture Library, Plant Cell Culture Library (PCCL) | 2026-10-17 01:35:28 | 2 | ||||||||
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Finnish Twin Cohort Study Resource Report Resource Website 1+ mentions |
Finnish Twin Cohort Study (RRID:SCR_017477) | data or information resource, database | Twin panel consists of three nationwide samples of Finnish twin pairs. Major studies include nicotine dependence, eating disorders and brain imaging and alcohol use. | Twin, Finnish, nicotine, dependence, eating, disorder, brain, imaginig, alcohol, data, | has parent organization: University of Helsinki; Helsinki; Finland | Restricted | SCR_017477 | SciCrunch Registry | 2026-10-17 01:35:29 | 1 | ||||||||||
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Allen Brain Atlas expression map of Cre and other drivers Resource Report Resource Website 1+ mentions |
Allen Brain Atlas expression map of Cre and other drivers (RRID:SCR_017510) | atlas, data or information resource | Data detailing transgene expression in Cre and other driver lines for adult and developing brain. Experiments include colorimetric in situ hybridization, fluorescent in situ hybridization and other histological methods. Expression maps of transgenic Cre and other driver lines in mice. | Data, image, transgene, expression, Cre, brain, map, mice | has parent organization: Allen Brain Atlas | Free, Freely available | SCR_017510 | SciCrunch Registry | Allen Brain Atlas Data Portal Transgenic Characterization | 2026-10-17 01:35:30 | 9 | |||||||||
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OSHA Occupational Chemical Database Resource Report Resource Website 1+ mentions |
OSHA Occupational Chemical Database (RRID:SCR_018203) | data or information resource, database | Chemical inventory for occupational chemical information. Collects information from several government agencies and organizations. Includes information about identification and physical properties, exposure limits, sampling. | OSHA, occupational chemical data, chemical inventory, government, identification and physical property, exposure limit, sampling, chemical reagent, data | Free, Freely available | SCR_018203 | SciCrunch Registry | 2026-10-17 01:33:41 | 4 | |||||||||||
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Alberta Diabetes Institute IsletCore database Resource Report Resource Website 1+ mentions |
Alberta Diabetes Institute IsletCore database (RRID:SCR_018566) | data or information resource, database | Collection of data from all pancreatic islet isolations. | Pancreatic islet, data set, image collection, human islet isolation data, human pancreatic islet, data | is related to: University of Alberta; Alberta; Canada | diabetes | Restricted | SCR_018566 | SciCrunch Registry | 2026-10-17 01:34:20 | 5 | |||||||||
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VGNC Resource Report Resource Website 10+ mentions |
VGNC (RRID:SCR_017514) | data or information resource, database, service resource | Software resource for vertebrate gene nomenclature. Database of gene symbols. Coordinates with vertebrate nomenclature committees, MGNC (mouse), RGNC (rat), CGNC (chicken), AGNC (Anole green lizard), XNC (Xenopus frog) and ZNC (zebrafish), to ensure genes are named in line with their human homologs. | Vertebrate, gene, nomenclature, data, symbol | is related to: HGNC | NHGRI U24 HG003345; Wellcome Trust |
Free, Freely available | SCR_017514 | SciCrunch Registry | Vertebrate Gene Nomenclature Committee | 2026-10-17 01:34:19 | 14 | ||||||||
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Robot Reviewer Resource Report Resource Website 1+ mentions |
Robot Reviewer (RRID:SCR_018961) | software application, software resource, text extraction software | Software tool as machine learning system that automatically assesses bias in clinical trials. From PDF formatted trial report determines risks of bias for domains defined by Cochrane Risk of Bias (RoB) tool, and extracts supporting text for these judgments. | Automated review, data mining, manuscript screening, artificial intelligence, automatic evidence synthesis, evidence synthesis, trial conduct information, data trial, bias, bias assessement | NCI UH2 CA203711; NLM R01 LM012086; UK Medical Research Council |
PMID:26104742 | Free, Freely available | SCR_018961 | SciCrunch Registry | 2026-10-17 01:33:39 | 7 | |||||||||
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Optogenetics Resource Center Resource Report Resource Website 1+ mentions |
Optogenetics Resource Center (RRID:SCR_017513) | data or information resource, database, service resource | Database of different optogenetics resources like hardware, protocols, sequence information. | Optogenetic, data | has parent organization: Stanford University; Stanford; California | Free, Freely available | SCR_017513 | SciCrunch Registry | 2026-10-17 01:33:41 | 2 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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